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mmu_circGolgb1_305
Basic information of circular RNA
PanCircBase ID:
mmu_circGolgb1_305
mm39_Chr. Position ID:
chr16|36720819|36728257|+
Gene name:
Golgb1
Transcript:
ENSMUST00000114812.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,4095,7364
Genomic length:
7438
Exon/intron sizes in nt:
116,115,74
Flanking exon/introns:
chr16:36719269-36720819|chr16:36728257-36732233
Splice length:
305
Other database IDs:
circAtlas: mmu-Golgb1_0004
circBase: hsa_circ_0121614, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_153973
Human Ortholog IDs:
Mature spliced Sequence:
ATCAACTCCAGCAAAAATCTAAAGAAATTAGCCAATTTGTAAATAAGCCAAACTTGCAAAAAAATGAAACAGCATCTCAGACTTCTTTACCAGATGTTAATAATGAGGGCGACCAGGCAGTGATGGAGGAGACTGTGGCCTCTTTACAGAAGAGAGTGGTAGAGCTAGAGAACGAGAAGGGAGCCTTGCTCCTTAGCTCTGGAGAGCTGGAGGAGCTGAAAGCCGAGAACGAAAAACTCTCCTCTCGGATTACTCTTTTGGAAGCTCAGAATAGAGCAGGGGAGGCTGATGGTACGGTCTGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGAGAACGAAAAACTCTCC
59.54
TGGTAAAGAAGTCTGAGATGCTGT
59.72
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGAGAACGAAAAACTCTCC
59.54
AGAAGTCTGAGATGCTGTTTCA
57.39
170
PCR template sequence:
GCTGGAGGAGCTGAAAGCCGAGAACGAAAAACTCTCCTCTCGGATTACTCTTTTGGAAGCTCAGAATAGAGCAGGGGAGGCTGATGGTACGGTCTGTGAGATCAACTCCAGCAAAAATCTAAAGAAATTAGCCAATTTGTAAATAAGCCAAACTTGCAAAAAAATGAAACAGCATCTCAGACTTCTTTACCAGATGTTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-452-3p(2), mmu-miR-129-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TACGGTCTGTGAGATCAACTCCAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGOLGB1_305_ORF_1
1.0635
0.302771397
0.396977581
225
ORF sequence:
ATGGAGGAGACTGTGGCCTCTTTACAGAAGAGAGTGGTAGAGCTAGAGAACGAGAAGGGAGCCTTGCTCCTTAGCTCTGGAGAGCTGGAGGAGCTGAAAGCCGAGAACGAAAAACTCTCCTCTCGGATTACTCTTTTGGAAGCTCAGAATAGAGCAGGGGAGGCTGATGGTACGGTCTGTGAGATCAACTCCAGCAAAAATCTAAAGAAATTAGCCAATTTGTAA
Peptide sequence:
MEETVASLQKRVVELENEKGALLLSSGELEELKAENEKLSSRITLLEAQNRAGEADGTVCEINSSKNLKKLANL
IRESfinder result
IRESfinder score
0.577608798
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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